RaCInG_package/_pkgdown.yml at main · VeraPancaldiLab/RaCInG_package · GitHub

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url: https://mhurtado13.github.io/racing/
template:
  bootstrap: 5

home:
  title: RaCInG
  description: R Analysis of Cell Interactions and Graphs

navbar:
  structure:
    left: [intro, reference, get-started]
    right: [github]
  components:
    get-started:
      text: Get Started
      href: articles/RaCiNG.html
    github:
      icon: fa-github
      href: https://github.com/mhurtado13/racing
      aria-label: GitHub repository

reference:
  - title: Main workflows
    contents:
      - prepare_input_files
      - compute_racing_kernel
      - compute_racing_montecarlo
  - title: Kernel and Monte Carlo methods
    contents:
      - compute_kernel
      - compute_kernel_features
      - calculateDirect
      - calculateWedges
      - computeTriangles
      - computeGSCC
      - countWedges
      - countTrustTriangles
      - countCycleTriangles
      - countDirect
      - countGSCC
      - model1
      - runSim
      - getGSCCAnalytically
  - title: Input generation
    contents:
      - createCellLigList
      - createCellRecList
      - createCellTypeDistr
      - createInteractionDistr
      - Read_Lig_Rec_Interaction
      - genRandomCellTypeDistr
      - genRandomLigRecDistr
      - genRandomCellLigands
      - genRandomCellReceptors
      - genRandomCellTypeList
      - generateUniformLRGraph
  - title: Graph utilities
    contents:
      - EdgetoAdj
      - EdgetoAdj_No_loop
      - Count_Types
      - Trust_Triangles
      - Cycle_Triangles
      - Wedges
      - Find_Number_Trust_Triangles_Unique
      - Find_Number_Triangles
      - Find_Number_Triangles_Unique
      - Find_Number_2Loops
      - Find_Number_2Loops_Unique
      - Find_Number_Wedges
      - Find_Number_Wedges_Unique
      - GSCC
      - IN
      - OUT
  - title: Example data
    contents:
      - skcm_example
  - title: Statistics and I/O
    contents:
      - wilcox_group_test
      - volcano_plot
      - Read_Sim_Output
      - compute_results_processing

articles:
  - title: Vignettes
    contents:
      - RaCiNG